Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

71

Sequences:

427

Seq/Len:

6.01

HH_delta:

0.862 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

7_R

11_A

0.3303

2.437

28_D

43_R

0.31553

2.328

51_L

55_I

0.29283

2.160

16_D

21_A

0.2736

2.019

1_W

5_R

0.25943

1.914

53_P

56_E

0.24078

1.776

8_E

12_R

0.21232

1.566

64_L

68_L

0.20973

1.547

2_A

10_M

0.20917

1.543

20_G

24_P

0.20144

1.486

38_E

42_N

0.19504

1.439

15_F

21_A

0.19142

1.412

10_M

16_D

0.18355

1.354

52_P

55_I

0.18211

1.344

3_E

7_R

0.17891

1.320

20_G

25_L

0.17154

1.266

32_P

51_L

0.16528

1.219

3_E

6_I

0.15828

1.168

41_A

44_I

0.15678

1.157

6_I

53_P

0.15662

1.155

48_A

54_W

0.15615

1.152

35_P

39_R

0.15578

1.149

56_E

59_K

0.15272

1.127

7_R

10_M

0.14887

1.098

41_A

54_W

0.14778

1.090

36_A

48_A

0.14669

1.082

56_E

63_E

0.14526

1.072

45_L

56_E

0.14383

1.061

2_A

6_I

0.14326

1.057

19_P

27_L

0.14129

1.042

30_D

43_R

0.13735

1.013

35_P

46_K

0.13703

1.011

39_R

48_A

0.13575

1.002

16_D

67_A

0.13558

1.000

11_A

57_L

0.13542

0.999

9_A

18_L

0.13464

0.993

51_L

68_L

0.13413

0.990

34_W

37_E

0.13353

0.985

5_R

41_A

0.13161

0.971

28_D

46_K

0.131

0.966

9_A

46_K

0.12995

0.959

28_D

32_P

0.12947

0.955

21_A

65_R

0.12888

0.951

1_W

4_R

0.12865

0.949

17_N

63_E

0.12706

0.937

35_P

38_E

0.125

0.922

35_P

42_N

0.12499

0.922

38_E

60_E

0.12204

0.900

37_E

48_A

0.12043

0.888

35_P

41_A

0.11903

0.878

37_E

43_R

0.11859

0.875

40_M

43_R

0.11855

0.875

12_R

18_L

0.11694

0.863

1_W

51_L

0.11508

0.849

8_E

11_A

0.11437

0.844

55_I

62_E

0.1143

0.843

56_E

60_E

0.11376

0.839

1_W

53_P

0.11251

0.830

62_E

65_R

0.11247

0.830

24_P

57_L

0.1112

0.820

16_D

19_P

0.11036

0.814

34_W

58_R

0.10931

0.806

57_L

65_R

0.10885

0.803

38_E

54_W

0.10741

0.792

10_M

15_F

0.10647

0.785

34_W

52_P

0.10622

0.784

4_R

21_A

0.10615

0.783

33_Y

64_L

0.10606

0.782

64_L

67_A

0.10592

0.781

55_I

63_E

0.10567

0.780

41_A

47_N

0.10523

0.776

17_N

32_P

0.10506

0.775

63_E

66_E

0.1043

0.769

44_I

59_K

0.10409

0.768

15_F

26_P

0.10385

0.766

58_R

61_I

0.10371

0.765

6_I

15_F

0.10331

0.762

39_R

45_L

0.10328

0.762

8_E

14_E

0.1032

0.761

61_I

65_R

0.10272

0.758

42_N

67_A

0.10219

0.754

19_P

26_P

0.10196

0.752

23_K

26_P

0.10073

0.743

8_E

55_I

0.10067

0.743

53_P

58_R

0.10051

0.742

5_R

46_K

0.09955

0.734

43_R

47_N

0.0994

0.733

7_R

68_L

0.09936

0.733

33_Y

66_E

0.09911

0.731

11_A

67_A

0.09909

0.731

4_R

59_K

0.09827

0.725

26_P

66_E

0.09821

0.725

10_M

63_E

0.09705

0.716

32_P

63_E

0.09655

0.712

2_A

29_D

0.0965

0.712

39_R

42_N

0.09632

0.711

30_D

66_E

0.09627

0.710

18_L

24_P

0.09605

0.709

4_R

8_E

0.09538

0.704

34_W

62_E

0.09536

0.704

39_R

46_K

0.09474

0.699

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)